Project info
Samples: dcDNA Seq
pychopper: no
mapping version: v6
LoRTIA: yes (stranded only output)
Filtering samples:
- C6_2h_3
- PC-12_8h_3
- C6_0.5h_1
- C6_0.5h_2 - C6_0.5h_3
Normalization: Viral read count
Only those reads were counted, where LoRTIA found 3-prime
polyA sequences !
1. Counts based on TES only (3` -ends of reads)
Statistics of counts
Difference from mean
Varcoeff

ORF kinetics, according to literature-based kinetic
classes
Time-dependent normalized ORF counts (based on TSSs and TES
clusters)
Mean and SD with linear connection

Each replicate with loess

Mean and SD with loess function
Combine Kinetic classes
sum up all the (normalized) gene counts for each kinetic class in
each sample (replicate) then take the mean and SD of the sums for each
hpi and cell line
Literature clusters

Literature Clusters and Selected Genes
Reps with loess and confidence

Means with SD and linear connection

Gene-pair ratios
These pairs were analyzed: ie180/us1, ie180/ep0, us1/ep0,
noir1/noir2, noir1/ie180, noir2/ie180
Means with SD and linear connection

Reps with loess and confidence

Sums with linear connection
